Fast Side Chain Replacement in Proteins Using a Coarse-Grained Approach for Evaluating the Effects of Mutation During Evolution

Binding constraints on the evolution of enzymes and signalling proteins: the important role of negative pleiotropy

(2011) D. A. Liberles et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Improving protein secondary structure prediction using a simple k-mer model

(2010) M. Madera et al.   BIOINFORMATICS

Protein structure modelling and evaluation based on a 4-distance description of side-chain interactions

(2010) Vladimir Potapov et al.   BMC BIOINFORMATICS

Molecular Simulation ofab InitioProtein Folding for a Millisecond Folder NTL9(1−39)

(2010) Vincent A. Voelz et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Statistical Potentials for Improved Structurally Constrained Evolutionary Models

(2010) Claudia L. Kleinman et al.   MOLECULAR BIOLOGY AND EVOLUTION

Multiscale Coarse-Graining of the Protein Energy Landscape

(2010) Ronald D. Hills et al.   PLoS Computational Biology

Lineage-Specific Differences in the Amino Acid Substitution Process

(2009) Snehalata Huzurbazar et al.   JOURNAL OF MOLECULAR BIOLOGY

An epistatic ratchet constrains the direction of glucocorticoid receptor evolution

(2009) Jamie T. Bridgham et al.   NATURE

The Pfam protein families database

(2009) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Improved prediction of protein side-chain conformations with SCWRL4

(2009) Georgii G. Krivov et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein Dynamism and Evolvability

(2009) N. Tokuriki et al.   SCIENCE

The Protein Folding Problem

(2008) Ken A. Dill et al.   Annual Review of Biophysics

Characterizing positive and negative selection and their phylogenetic effects

(2008) Steven E. Massey et al.   GENE

A united residue force-field for calcium-protein interactions

(2004) Mey Khalili et al.   PROTEIN SCIENCE

Side-chain modeling with an optimized scoring function

(2002) Shide Liang et al.   PROTEIN SCIENCE